finding mutation from RNA seq data
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4.8 years ago
Learner ▴ 250

Hello,

I have many samples, I am searching to find whatever package or software which is used for finding mutation using the RNAseq data.

I already know about InVex and mutSig . is there any other software or package available?

RNA-Seq • 2.2k views
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4.8 years ago
Ram ▴ 180

You can find this paper helpful describing SNPiR pipeline : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3676881/

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For a moment there, I was wondering "When did I modify this question?"

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4.8 years ago
Medhat 9.4k

here there is a list of tools

https://omictools.com/variant-detection2-category

from those I suggest GATK or samtools

a nice review to compare different tools
Indel detection from RNA-seq data: tool evaluation and strategies for accurate detection of actionable mutations

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